RetrogeneDB ID: | retro_dnov_1559 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2347:79653..80099(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CIDEC | ||
| Ensembl ID: | ENSDNOG00000018422 | ||
| Aliases: | None | ||
| Description: | cell death-inducing DFFA-like effector c [Source:HGNC Symbol;Acc:24229] |
Retrocopy-Parental alignment summary:
>retro_dnov_1559
AAGTTCAGAGACACCCTGATGCTGGCAGACAAGTCCTTCTCCCTGGCGCTGGAAGAAGACGGCACACCTGGAGAAACAGA
AGAGTATTTCCAGGCTCTGACAGGAGAGACAGTGTTCACAGTGCTCCAGAAGGGGCAAAAATGGCAGCCCCCATCAGAGC
AGGGGGAGAGGAACCAACTCTCCCTCTCCCACAAGCCAGTCAAGAAGATCAGTGTGGTCCCGCAACCTTGGATCTGTACG
GGTTGAAGCTGAAGGATTTCCTTGGCTGCCTGCATGTAAAGGCATCTCTCTTTGGCACATACTCCCTCTCCTACGAGCTT
TGCTGCTACGGGGCCAAGCGCATCATGAAGGAAGCCCACGCTGGGCCCGCCTCAGCCTGCAGGCCACAGGCCCCGTGCTG
CCGGCACCTCCTGTTACATGCAGCAGCTCTGGGTGCCATAGAGGAA
ORF - retro_dnov_1559 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.88 % |
| Parental protein coverage: | 67.29 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | KVRDTLMLADKPFSLVLEEDGTIVETEDYFQALAADTVFMVLQKGQKWQPLSE-GNGN---LSHK--QKI |
| K.RDTLMLADK.FSL.LEEDGT..ETE.YFQAL...TVF.VLQKGQKWQP.SE.G..N...LSHK...KI | |
| Retrocopy | KFRDTLMLADKSFSLALEEDGTPGETEEYFQALTGETVFTVLQKGQKWQPPSEQGERNQLSLSHKPVKKI |
| Parental | DVV-GVTFILYKLNPQDFIGCLNVKATLYGTYSLSYDLHCCGAKRVVKEA-LRWALFSMQATGHVL-LGT |
| .VV...T..LY.L...DF.GCL.VKA.L.GTYSLSY.L.C.GAKR..KEA..RWA..S.QATG.VL..GT | |
| Retrocopy | SVV<PATLDLYGLKLKDFLGCLHVKASLFGTYSLSYELCCYGAKRIMKEA<PRWARLSLQATGPVL<AGT |
| Parental | SCYMQRL-LDATEE |
| SCYMQ.L.L.A.EE | |
| Retrocopy | SCYMQQL<LGAIEE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 29 .75 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .23 RPM |
| SRP012922_kidney | 0 .00 RPM | 32 .58 RPM |
| SRP012922_liver | 0 .00 RPM | 27 .71 RPM |
| SRP012922_lung | 0 .00 RPM | 0 .00 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .10 RPM |
| SRP012922_spleen | 0 .00 RPM | 0 .00 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_1559 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000005266 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000018422 | 2 retrocopies |
retro_dnov_1559 , retro_dnov_751,
|
| Vicugna pacos | ENSVPAG00000002888 | 1 retrocopy |